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Table 3 Rabema evaluation

From: Benchmarking short sequence mapping tools

Error

#Reads

Bowtie

Bowtie2

BWA

SOAP2

Novoalign

mrsFAST

0

832

100

100

100

100

97.24

100

1

6316

96.99

100

100

100

98.29

100

2

23495

97.30

97.16

100

99.97

98.70

100

3

55941

97.00

95.92

99.85

95.78

98.84

100

4

98063

96.48

94.22

99.49

96.43

99.02

100

5

135096

95.63

91.14

98.76

97.34

99.12

100

  1. Rabema evaluation results on the different tools using a data set of 1 million reads of length 100 extracted from the Human genome using ART. The maximum allowed error is 5% (i.e., 5 mismatches in this case). #Reads is the number of reads expected to be mapped with certain Error. The remaining columns for the tools show the percentage of reads detected by each tool out of the #Reads. Invalid mappings (i.e., reads mapped with errors more than the assigned error rate threshold) for Bowtie and Novoalign are 567,531 and 587,542 reads, respectively.